A comparison of the accuracy of Illumina HumanHT-12 v3 Expression BeadChip and TaqMan qRT-PCR gene expression results in patient samples from the Tampere Vascular Study

作者：Raitoharju Emma^*; Seppala Ilkka; Lyytikainen Leo Pekka; Levula Mari; Oksala Niku; Klopp Norman; Illig Thomas; Laaksonen Reijo; Kahonen Mika; Lehtimaki Terho

来源：Atherosclerosis, 2013, 226(1): 149-152.

DOI：10.1016/j.atherosclerosis.2012.10.078

• Atherosclerosis
• Genome-wide expression array
• Polymerase chain reaction
• Accuracy
• Sensitivity
• Specificity

Aims: This study was set up to compare the accuracy, sensitivity and specificity of gene expression results between the Illumina HumanHT-12 v3 Expression BeadChip (GWE) and the TaqMan qRT-PCR low-density array (LDA) in atherosclerotic plaques. %26lt;br%26gt;Methods: Gene expression levels of 196 genes were determined from 22 atherosclerotic samples and 6 controls with both the GWE and the LDA. %26lt;br%26gt;Results: The accuracies of GWE in comparison to that of qRT-PCR for absolute fold changes (FC) 1.2,1.6, 2.0 and 3.0 between cases and controls were 73.5%, 79.1%, 72.4% and 60.7%, respectively. The correlation of expression measurements between these methods was good (r = 0.87, y = 0.151 + 0.586x), and the Bland-Altman plot showed that for highly up-or down-regulated transcripts, GWE yields lower absolute FC values than LDA. %26lt;br%26gt;Conclusion: Gene expression results obtained with the GWE are replicated with high accuracy in LDA, even for technically demanding atherosclerotic samples.

• 出版日期2013-1